TestResults-class           package:limma           R Documentation

_M_a_t_r_i_x _o_f _T_e_s_t _R_e_s_u_l_t_s - _c_l_a_s_s

_D_e_s_c_r_i_p_t_i_o_n:

     A matrix-based class for storing the results of simultanous tests.
     'TestResults' objects are normally created by 'classifyTestsF',
     'classifyTestsT' or 'classifyTestsP'.

_U_s_a_g_e:

     ## S3 method for class 'TestResults':
     summary(object, ...)

_A_r_g_u_m_e_n_t_s:

  object: object of class 'TestResults'

     ...: other arguments are not used

_S_l_o_t_s/_L_i_s_t _C_o_m_p_o_n_e_n_t_s:

     'TestResults' objects can be created by
     'new("TestResults",results)' where 'results' is a matrix. Objects
     of this class contain no slots (other than '.Data'), although the
     attributes 'dim' and 'dimnames' may be treated as slots.

_M_e_t_h_o_d_s:

     This class inherits directly from class 'matrix' so any operation
     appropriate for matrices will work on objects of this class.
     'show' and 'summary' methods are also implemented.

     Functions in LIMMA which operate on 'TestResults' objects include
     'heatDiagram', 'vennCounts', 'vennDiagram', 'write.fit'.

_A_u_t_h_o_r(_s):

     Gordon Smyth

_S_e_e _A_l_s_o:

     02.Classes gives an overview of all the classes defined by this
     package. 08.Tests gives an overview of multiple testing.

_E_x_a_m_p_l_e_s:

     ## Not run: 
     #  Assume a data object MA and a design matrix
     fit <- lmFit(MA, design)
     fit <- eBayes(fit)
     results <- decideTests(fit)
     summary(results)
     ## End(Not run)